A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2025-05-22, 16:00 CEST
based on data in:
/home/aumoreno/Desktop/bam/final_github/bam_analysis_results
Summary tables
Parse information from bam_header_info.txt and genome_results.txt.
BAM Header Info
Basic metadata extracted from the BAM header
| Sample Name | Parameter | Version | Sort Order | Platform | Genome Assembly Identifier | Library | Programs |
|---|---|---|---|---|---|---|---|
Value | 1.0 | coordinate | ILLUMINA | N/A | 2845856850 | GenomeAnalysisTK | bam_calculate_bq | bam_count_covariates | bam_mark_duplicates | bam_merge | bam_merge.1 | bam_realignment_around_known_indels | bam_recalibrate_quality_scores | bwa | bwa_aln_fastq | bwa_index | bwa_sam | gatk_target_interval_creator | picard | sam_to_fixed_bam | samtools |
Genome Results Summary
General information from the BAM file
| Sample Name | Number of reads | Number of mapped reads | Number of mapped paired reads (both in pair) | Number of mapped paired reads (singletons) | Number of duplicated reads | Mean insert size | Mean mapping quality | % GC | General error rate | Mean coverage | Std coverage |
|---|---|---|---|---|---|---|---|---|---|---|---|
145063589 | 144534109 | 143484556 | 529412 | 3351244 | 21005.5861 | 48.7 | 40.2 | 0.0 | 4.4351X | 20.6409X |
Median coverage across reference
Genome Fraction Coverage
Mapped Reads Clipping Profile
Mapped Reads Nucleotide Content
Homopolymer Indels
Mapping Quality Histogram
Insert Size Histogram
RSeQC
Evaluates high throughput RNA-seq data.URL: http://rseqc.sourceforge.netDOI: 10.1093/bioinformatics/bts356
Read Distribution
Read Distribution calculates how mapped reads are distributed over genome features.